4O61 Oxidoreductase date Dec 20, 2013
title Structure Of Human Alkbh5 Crystallized In The Presence Of Ci
authors W.Tempel, X.Chao, K.Liu, A.Dong, T.Cerovina, H.He, C.Bountra, C.H.Arrowsmith, A.M.Edwards, J.Min, Structural Genomics Consor (Sgc)
compound source
Molecule: Rna Demethylase Alkbh5
Chain: A, B
Fragment: Unp Residues 74-294
Synonym: Alkylated Dna Repair Protein Alkb Homolog 5, Alpha Ketoglutarate-Dependent Dioxygenase Alkb Homolog 5;
Ec: 1.14.11.-
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Alkbh5, Abh5, Ofoxd1
Expression_system: Escherichia Coli
Expression_system_taxid: 511693
Expression_system_strain: Bl21-V2r-Prare2
Expression_system_plasmid: Pet28-Mhl
symmetry Space Group: P 1 21 1
R_factor 0.174 R_Free 0.230
length a length b length c angle alpha angle beta angle gamma
50.471 57.172 78.644 90.00 102.23 90.00
method X-Ray Diffractionresolution 1.90 Å
ligand CIT, GOL, UNL, UNX enzyme Oxidoreductase E.C.1.14.11 BRENDA
A, B

Primary referenceStructures of human ALKBH5 demethylase reveal a unique binding mode for specific single stranded m6A RNA demethylation., Xu C, Liu K, Tempel W, Demetriades M, Aik W, Schofield CJ, Min J, J Biol Chem. 2014 Apr 28. PMID:24778178
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (80 Kb) [Save to disk]
  • Biological Unit Coordinates (4o61.pdb1.gz) 38 Kb
  • Biological Unit Coordinates (4o61.pdb2.gz) 39 Kb
  • LPC: Ligand-Protein Contacts for 4O61
  • CSU: Contacts of Structural Units for 4O61
  • Structure Factors (2547 Kb)
  • Retrieve 4O61 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4O61 from S2C, [Save to disk]
  • Re-refined 4o61 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4O61 in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 4O61
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 4O61, from MSDmotif at EBI
  • Fold representative 4o61 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4o61_A] [4o61] [4o61_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 4O61
  • Community annotation for 4O61 at PDBWiki (http://pdbwiki.org)

  • You may enter another PDB ID code
    Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]
    OCA© by Jaime Prilusky, 1996-2014
    Bioinformatics Unit
    Weizmann Institute of Science